Learn to use PlantGDB, the primary resource for plant comparative genomics. PlantGDB contains transcript assemblies for over 100 plant species. For those species with sequenced genomes PlantGDB provides tools which allow for easy viewing and evaluation of transcript and protein alignments. PlantGDB also contains tools useful in identifying and comparing sequences across many plant species quickly and efficiently.

You will learn:

  • to perform quick searches and navigate sequence pages
  • to conduct BLAST searches across several plant species of your choice
  • to create exon/intron gene predictions and sequence alignments
  • to construct tables displaying highly varied information from many datasets
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group Plant resources. You might find the other tutorials in the group interesting:

Ensembl: Ensembl Genome Browser

TAIR: The Arabidopsis Information Resource

GBrowse: GBrowse User Introductory Tutorial

Ensembl Legacy: Older version of Ensembl Genome Browser

Gramene: A resource on rice and other grass genomes

World Tour of Genomics Resources: A World Tour of Genome Resources for finding and learning the right resource for your needs.

CATEGORIES

Genome Databases (euk) : Genomic databases or repositories primarily aimed at eukaryotic organisms. Some may contain prokaryotic data as well.

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New Online Tutorials on ZFIN, SGD, PlantGDB and GBrowse Resources: Comprehensive tutorials on the model organism databases ZFIN, SGD and PlantGDB and GBrowse, a model organism genome browser, enable researchers to quickly and effectively use these invaluable resources...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Jiang Yue et al., Metatranscriptomic analysis of diverse microbial communities reveals core metabolic pathways and microbiome-specific functionality. Microbiome (2016) doi:10.1186/s40168-015-0146-x

Ochoa Cruz Andres Edgar et al., Virus-like attachment sites as structural landmarks of plants retrotransposons. Mobile DNA (2016) doi:10.1186/s13100-016-0069-5

Guizard Sébastien et al., Deep landscape update of dispersed and tandem repeats in the genome model of the red jungle fowl, Gallus gallus , using a series of de novo investigating tools Non-human and non-rodent vertebrate genomics. BMC Genomics (2016) doi:10.1186/s12864-016-3015-5

Bedre Renesh et al., Transcriptome analysis of smooth cordgrass ( Spartina alterniflora Loisel), a monocot halophyte, reveals candidate genes involved in its adaptation to salinity Plant genomics. BMC Genomics (2016) doi:10.1186/s12864-016-3017-3

Merino Irene et al., Transcript profiling for early stages during embryo development in Scots pine Development and cell biology. BMC Plant Biology (2016) doi:10.1186/s12870-016-0939-5